Controllable lossy compression of BAM/CRAM files
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
input
:file
BAM/CRAM/SAM file
*.{bam,cram,sam}
keepbed
BED file defining regions to keep quality
bedout
:boolean
set to true to output suspicious regions to a BED file
bam
*.bam
optional filtered/compressed BAM file
*.{bam}
cram
*.cram
optional filtered/compressed CRAM file
*.{cram}
sam
*.sam
optional filtered/compressed SAM file
*.{sam}
bed
*.bed
optional suspicious regions BED file
*{bed}
versions_crumble
${task.process}
:string
The name of the process
crumble
The name of the tool
0.9.1
The expression to obtain the version of the tool
versions
